In the Clique configuration menu, you'll see a dropdown menu where you can set different settings for different conditions. The more you use this dropdown to define your intentions, the less trouble you'll have using unitframes normally. For example, out of combat setting - assign right click to open the dropdown menu... if you want it to work as normal (note- in combat your right click assignment will be whatever you set it for for harmful or helpful setting).

This is just my experience and preference using clique, whatever fits you best is something you'll have to play around with and choose for yourself. I would suggest browsing the "Help with Clique" thread in Cladhaires featured forums though, because nothing about nUI will be different than any other unit frame when it concerns Clique.